Monthly Archives: March 2011

Friday 03/18/11

Posted on March 18, 2011 by admin

7:45A – 8:15A, 10:30A -8:10P, 8:40P- Publication edits to Markov Paper: resubmitted. Git repository: update Transcription repository (Markov Paper code), Markov Paper Git doc tracking. Literature catch-up (1:30-2:45p) Snail heterogeneity analysis: Running Unsupervised_Dotfinding on more embryos. Only 6GB memory in machine?  should … Continue reading →

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Thursday 03/17/11

Posted on March 17, 2011 by admin

9:40A – 7:05 P, 8:00 P – 11:05 P gap-shadow messages Working on Fly Meeting slides. New assay, new code: measure fraction of activation for snail as a function of distance from midline, demonstrate that sometimes enhancer looping rate is rate-limiting. … Continue reading →

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3D imaging

Posted on March 17, 2011 by admin

3D imaging comparison of effect of activator concentration on molecular noise.  Assayed by cell-cell variation in total concentration.

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Wednesday 03/16/11

Posted on March 16, 2011 by admin

8:40 A — 7:10 P, 8:00 P — 11:00A New kr kni analysis, compare to regions (see post). Angela’s talk: mesoderm spreading and CVM migration. Working on 3d visualization code (see post tomorrow). water hb rescue crosses (not looking too … Continue reading →

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Protected: New Methods fig

Posted on March 16, 2011 by admin

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Protected: more kr kni measurements for gap-shadow paper

Posted on March 16, 2011 by admin

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Analyzing effect of increasing Gal4

Posted on March 15, 2011 by admin

Images with high variability have high overall average expression rate in MGa2x, images with more uniform expression have lower levels.  The reverse is true for MGa1x. MGa1x          

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Tuesday 03/15/11

Posted on March 15, 2011 by admin

9:50 A — 4:00P, 8:00P — 11:00P Finish confocal run MP09_22C Run Unsupervised_DotFinding on MGa2x and 1x data.  Changed Gaussian filter to sigma_E,I = 2.5,3 instead of 3.5,4 (make better classification). Discussion with ML on gap shadows (finally) Sort all … Continue reading →

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Image processing

Posted on March 15, 2011 by admin

Working on analysis for MGa1x vs 2x. Shown left, mRNA densities for MGa2x.  Internal control for MGa2x achieved by measuring expression.     With Mga 1x, compare ush(?) intronic probe as a measure of background.  Only 0-5 dots found per … Continue reading →

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Monday 03/14/11

Posted on March 14, 2011 by admin

8:50 A — 9:15A, 10:00A – 7:30P, 8:00P – 11:20P Discussion with Perry about rewriting:  looks like tll-Gro mediates repression of kni posterior border in a dominant fashion through the distal (5′) enhancer. Making supplemental figure: Quantification methods. Write new … Continue reading →

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